Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06782	0.786
27DAP/17DAP	0.82852	0.577
39DAP/27DAP	0.97739	0.769
41DAP/39DAP	0.63895	0.058
42DAP/41DAP	1.03092	1
43DAP/42DAP	1.07651	1
47DAP/43DAP	0.72492	0.221
52DAP/47DAP	0.91635	0.75
57DAP/52DAP	1.45591	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05027	0.76
17DAP/reference	1.18496	0.104
27DAP/reference	1.33703	0.01
39DAP/reference	1.24272	0.037
41DAP/reference	1.04562	0.48
42DAP/reference	1.16924	0.01
43DAP/reference	0.99528	0.84
47DAP/reference	1.24389	0.015
52DAP/reference	1.11371	0.84
57DAP/reference	1.30871	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17299	0.205
27DAP/17DAP	0.98991	0.943
39DAP/27DAP	1.0295	0.811
41DAP/39DAP	1.08077	0.895
42DAP/41DAP	0.96371	0.695
43DAP/42DAP	0.98053	0.801
47DAP/43DAP	0.99799	0.977
52DAP/47DAP	0.92401	0.694
57DAP/52DAP	1.09187	0.674
57DAP/7DAP	1.49603	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00976	1
17DAP/reference	1.03312	0.896
27DAP/reference	0.95458	0.283
39DAP/reference	0.83753	0.056
41DAP/reference	0.76318	0.017
42DAP/reference	1.08893	0.233
43DAP/reference	0.93733	0.21
47DAP/reference	0.77582	0.044
52DAP/reference	0.83907	0.016
57DAP/reference	0.8552	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98101	0.756
17DAP/reference	1.16564	0.156
27DAP/reference	1.17694	0.195
39DAP/reference	1.03853	1
41DAP/reference	0.85797	0.061
42DAP/reference	1.02698	0.969
43DAP/reference	0.98076	0.581
47DAP/reference	0.99028	0.609
52DAP/reference	0.89637	0.156
57DAP/reference	0.72992	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10328	0.196
17DAP/reference	1.16721	0.065
27DAP/reference	1.05579	0.487
39DAP/reference	1.05135	0.377
41DAP/reference	1.00883	1
42DAP/reference	1.06593	0.459
43DAP/reference	1.12074	0.369
47DAP/reference	0.86311	0.145
52DAP/reference	0.94972	0.518
57DAP/reference	1.30504	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.57745	0.966
26DAP/20DAP	1.23397	0.235
34DAP/26DAP	1.12062	1
51DAP/34DAP	1.20224	0.314
52DAP/51DAP	0.94658	1
53DAP/52DAP	1.1791	0.845
55DAP/53DAP	1.00228	0.925
57DAP/55DAP	1.33058	0.11
62DAP/57DAP	0.87884	0.871
68DAP/62DAP	0.92827	0.769
68DAP/14DAP	1.21357	0.384

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97869	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9505	0.648
Mature Green Tomato/Ripe Tomato	1.92878	0.015
Immature Eggplant/Mature Eggplant	0.96363	0.72
Ripe Pepper/Ripe Tomato	1.48354	1
Mature Eggplant/Ripe Tomato	1.50371	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.30673	0.409
1-1-2/M82	0.90089
12-2/M82	0.86678	0.727
12-4/M82	0.79027	0.33
1-3/M82	1.79545	0.277
2-1-1/M82	0.91243	1
2-1/M82	0.63925
2-6/M82	1.10234	0.594
3-2/M82	0.99633
4-1-1/M82	0.83666	1
4-1/M82	0.98234
4-3-2/M82	1.4152	0.284
4-3/M82	1.43002	0.268
5-3/M82	1.01058	1
6-2/M82	1.13216
6-3/M82	1.03518	1
7-1/M82	0.79489	0.452
7-2/M82	1.15633	0.385
9-3-2/M82	1.4191

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.85235
WT/WTpooled	N/A	N/A

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.10798	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95452	1
DC3000/delta hrp 6h	1.14541	0.582
DC3000/delta hrp 12h	0.70857	1
DC3000/delta hrp 24h	0.48694	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81688
DC3000 delta B/DC3000 delta AB	0.76813	0.359

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0101	1
Exp 36h	1.0567	1
Exp 60h	0.88621	0.386

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.9967	1
Var 0h	0.77394	0.933
Var 12h I row2-row1	0.8036	0.338
Var 12h NI row2-row1	1.07596	1
Var 36h I row2-row1	0.96889	1
Var 36h NI row2-row1	1.20209	0.276
Var 60h I row2-row1	0.87851	0.832
Var 60h NI row2-row1	0.99191	1
Time course 0hI-0hNI	0.9933	1
Time course 12hI-12hNI	0.95861	0.719
Time course 36hI-36hNI	0.87786	0.066
Time course 60hI-60hNI	0.24537	0.005

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.03805	0.455
transgenic ySAMdc/azygous control (breaker)	1.16403	0.248
transgenic ySAMdc/azygous control (red)	1.07416	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.25457	0.1

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39711	0.222

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.15075	0.093
Manapal/WT (break)	3.86362	0.14
Manapal/WT (red)	1.87064	0.222